J3_9NPY_006

3D structure

PDB id

9NPY (explore in PDB, NAKB, or RNA 3D Hub)

Description

SARS-CoV-2 nsp1 bound to the Rhinolophus lepidus 40S ribosome (local refinement of the 40S head)

Experimental method

ELECTRON MICROSCOPY

Resolution

2.1 Å

Loop

Sequence

UG*UGUC*GAUAA

Length

11 nucleotides

Bulged bases

9NPY|1|i|A|1378

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

J3_9NPY_006 not in the Motif Atlas

Geometric match to J3_8CRE_083

Geometric discrepancy: 0.0872

The information below is about J3_8CRE_083

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_76043.3

Basepair signature

cWW-cWW-tSS-F-F-F-F-cWW

Number of instances in this motif group

3

Unit IDs

9NPY|1|i|U|1350
9NPY|1|i|G|1351
*
9NPY|1|i|U|1360
9NPY|1|i|G|1361
9NPY|1|i|U|1362
9NPY|1|i|C|1363
*
9NPY|1|i|G|1375
9NPY|1|i|A|1376
9NPY|1|i|U|1377
9NPY|1|i|A|1378
9NPY|1|i|A|1379

Current chains

Chain i

18S ribosomal RNA

Nearby chains

Chain R

40S ribosomal protein eS17, RPS17